diff --git a/.gitignore b/.gitignore index 6ca8ff4..077ec86 100644 --- a/.gitignore +++ b/.gitignore @@ -15,4 +15,5 @@ inst/cytosig_signature_centroid.csv .Rhistory LIANA.Rproj .gitattributes +liana.Rproj diff --git a/README.md b/README.md index 9609af3..79440f9 100644 --- a/README.md +++ b/README.md @@ -7,7 +7,7 @@ LIANA enables the use of any combination of ligand-receptor methods and resources, and their consensus. A faster and memory efficient Python implementation is available [here](https://github.com/saezlab/liana-py). ## Install LIANA -```{r} +```r if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") diff --git a/vignettes/liana_tutorial.Rmd b/vignettes/liana_tutorial.Rmd index e2bd29c..fafb297 100644 --- a/vignettes/liana_tutorial.Rmd +++ b/vignettes/liana_tutorial.Rmd @@ -208,7 +208,7 @@ p <- chord_freq(liana_trunc, ``` -For more advanced visualization options, we kindly refer the user to [SCPubr](https://enblacar.github.io/SCpubr-book/21-LigandReceptorPlot.html). +For more advanced visualization options, we kindly refer the user to [SCpubr](https://github.com/enblacar/SCpubr/) (see [`SCpubr::do_LigandReceptorPlot()`](https://enblacar.github.io/SCpubr-book-v1/21-LigandReceptorPlot.html)). ## Run any method of choice.